This Accepted Manuscript has not been copyedited and formatted. The final version may differ from this version. Research Article: New Research | Disorders of the Nervous System Clonal analysis of newborn hippocampal dentate granule cell proliferation and development in temporal lobe epilepsy Clonal analysis of newborn granule cells in epilepsy Shatrunjai P. Singh 1,2 1 1,4 , Candi L. LaSarge , Amen An 1 , John J. McAuliffe and Steve C. Danzer 1 Department of Anesthesia, Cincinnati Children’s Hospital Medical Center, Cincinnati, Ohio 45229 2 Molecular and Developmental Biology Program, University of Cincinnati, Cincinnati, OH 45237 3 Departments of Anesthesia and Pediatrics, University of Cincinnati, Cincinnati, OH 45267 1,2,3 4 Department of Neuroscience, McMicken College of Arts and Sciences, University of Cincinnati, Cincinnati, OH 45221 DOI: 10.1523/ENEURO.0087-15.2015 Received: 12 August 2015 Revised: 23 November 2015 Accepted: 1 December 2015 Published: 24 December 2015 Author Contributions: S.P.S., C.L., and A.A. performed research; S.P.S., C.L., J.J.M., and S.C.D. analyzed data; S.P.S., C.L., J.J.M., and S.C.D. wrote the paper; S.C.D. designed research. Funding: NINDS: 2R01-NS-065020. Albert J. Ryan Fellowship Award; American Heart Association Pre-Doctoral Award; Conflict of Interest: Authors report no conflict of interest. National Institute of Neurological Disorders and Stroke (SCD, 2R01-NS-065020). Albert J. Ryan Foundation fellowship (SPS). American Heart Association Pre-Doctoral Award (SPS). Correspondence should be addressed to: Dr. Steve C. Danzer, 3333 Burnet Avenue, ML 2001, Cincinnati, Ohio 45229-3039, (513) 636-4526 (phone), (513) 636-7337 (fax). Email: [email protected] Cite as: eNeuro 2015; 10.1523/ENEURO.0087-15.2015 Alerts: Sign up at eneuro.org/alerts to receive customized email alerts when the fully formatted version of this article is published. Accepted manuscripts are peer-reviewed but have not been through the copyediting, formatting, or proofreading process. This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution and reproduction in any medium provided that the original work is properly attributed. Copyright © 2015 Society for Neuroscience eNeuro http://eneuro.msubmit.net eN-NWR-0087-15R1 Clonal analysis of newborn hippocampal dentate granule cell proliferation and development in temporal lobe epilepsy This is a confidential document and must not be discussed with others, forwarded in any form, or posted on websites without the express written consent of eNeuro. Title Page 1 2 1. Manuscript Title (50 word maximum) 3 4 5 Clonal analysis of newborn hippocampal dentate granule cell proliferation and development in temporal lobe epilepsy 6 2. Abbreviated Title (50 character maximum) 7 Clonal analysis of newborn granule cells in epilepsy 8 9 10 3. List all Author Names and Affiliations in order as they would appear in the published article 11 12 13 14 15 16 17 18 19 Shatrunjai P. Singh1,2 , Candi L. LaSarge1, Amen An1,4 , John J. McAuliffe1 and Steve C. Danzer1,2,3 20 21 22 4. Author Contributions: Each author must be identified with at least one of the following: Designed research, Performed research, Contributed unpublished reagents/ analytic tools, Analyzed data, Wrote the paper. 23 24 25 SPS performed research, analyzed data and wrote the paper. CLS performed research, analyzed data, wrote paper. AA performed research. JJM analyzed data and wrote the paper. SCD designed research, analyzed data and wrote the paper. 1 Department of Anesthesia, Cincinnati Children’s Hospital Medical Center, Cincinnati, Ohio 45229; 2Molecular and Developmental Biology Program, University of Cincinnati, Cincinnati, OH 45237; 3Departments of Anesthesia and Pediatrics, University of Cincinnati, Cincinnati, OH 45267; 4McMicken College of Arts and Sciences, Department of Neuroscience, University of Cincinnati, Cincinnati, OH 45221 26 27 5. Correspondence should be addressed to (include email address) 28 29 30 31 32 33 Dr. Steve C. Danzer 3333 Burnet Avenue, ML 2001 Cincinnati, Ohio 45229-3039 (513) 636-4526 (phone) (513) 636-7337 (fax) Email: [email protected] 1 34 35 6. Number of Figures: 6 36 7. Number of Tables: 1 37 8. Number of Multimedia: 0 38 9. Number of words for Abstract: 239 39 10. Number of words for Significance Statement: 111 40 11. Number of words for Introduction: 430 41 12. Number of words for Discussion: 1895 42 13. Acknowledgements 43 44 45 46 47 48 49 50 51 This work was supported by the National Institute of Neurological Disorders and Stroke (SCD, 2R01-NS-065020), the Albert J. Ryan Foundation fellowship (SPS) and the American Heart Association Pre-Doctoral Award (SPS). The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institute of Neurological Disorders and Stroke, the National Institutes of Health, or the Albert J. Ryan Foundation or the American Heart Association. We would like to thank Matthew Kofron and Micheal Muntifering (Confocal Imaging Core, Cincinnati Children’s Hospital, Cincinnati, OH) for technical advice on imaging modalities used for this study. We would also like to thank Keri Kaeding and Mary Dusing for useful comments on the earlier versions of this manuscript. 52 53 14. Conflict of Interest 54 Authors report no conflict of interest 55 56 15. Funding sources 57 National Institute of Neurological Disorders and Stroke (SCD, 2R01-NS-065020) 58 Albert J. Ryan Foundation fellowship (SPS) 59 American Heart Association Pre-Doctoral Award (SPS) 60 2 61 Abstract Hippocampal dentate granule cells are among the few neuronal cell types generated 62 63 throughout adult life in mammals. In the normal brain, new granule cells are generated from 64 progenitors in the subgranular zone and integrate in a typical fashion. During the development of 65 epilepsy, granule cell integration is profoundly altered. The new cells migrate to ectopic 66 locations and develop misoriented “basal” dendrites. Although it has been established that these 67 abnormal cells are newly-generated, it is not known whether they arise ubiquitously throughout 68 the progenitor cell pool or are derived from a smaller number of “bad actor” progenitors. To 69 explore this question, we conducted a clonal analysis study in mice expressing the Brainbow 70 fluorescent protein reporter construct in dentate granule cell progenitors. Mice were examined 71 two months after pilocarpine-induced status epilepticus; a treatment that leads to the 72 development of epilepsy. Brain sections were rendered translucent so that entire hippocampi 73 could be reconstructed and all fluorescently-labeled cells identified. Our findings reveal that a 74 small number of progenitors produce the majority of ectopic cells following status epilepticus, 75 indicating that either the affected progenitors or their local micro-environments have become 76 pathological. By contrast, granule cells with “basal” dendrites were equally distributed among 77 clonal groups. This indicates that these progenitors can produce normal cells and suggests that 78 global factors sporadically disrupt the dendritic development of some new cells. Taken together, 79 these findings strongly predict that distinct mechanisms regulate different aspects of granule cell 80 pathology in epilepsy. 81 82 83 3 84 Significance Statement 85 Epileptogenic injuries disrupt adult neurogenesis, leading to the abnormal integration of adult- 86 generated granule cells. The newborn cells exhibit a variety of pathologies, including dendritic 87 abnormalities and migration defects. It was not known, however, whether all progenitors 88 contributed equally to the accumulation of these abnormal cells or whether a distinct subset of 89 progenitors was responsible. Here, we performed a clonal analysis study of progenitor cell 90 activity following status epilepticus. Our results reveal that a small subset of progenitors 91 produces the majority of ectopic granule cells, while cells with abnormal dendrites arise 92 ubiquitously throughout the progenitor pool. Together, these findings demonstrate a newly- 93 understood complexity among progenitors in producing abnormal granule cells in epilepsy. 94 4 95 Introduction 96 Hippocampal dentate granule cells (DGCs) are generated throughout life from progenitor 97 cells located in the subgranular zone, a proliferative region located between the granule cell body 98 layer and the hilus. A subset of progenitor cells in this region expresses the Gli1 transcription 99 factor, a Krüppel family zinc-finger protein activated by the sonic hedgehog-signal transduction 100 cascade (Ahn and Joyner, 2005, Palma et al., 2005). Sonic hedgehog is a key regulator of cell 101 proliferation (Lai et al., 2003). Gli1-expressing type-1 progenitor cells are morphologically 102 characterized by the presence of a radial process that projects into the dentate inner molecular 103 layer. They exhibit the stem cell characteristics of self-renewal and multipotency and give rise to 104 intermediate progenitors (type-2 cells; transient amplifying cells); which, in turn, give rise to 105 postnatally-generated dentate granule cells. Type-1 cells can also give rise to astrocytes 106 (Bonaguidi et al., 2012). 107 Adult-born DGCs are especially vulnerable to epileptogenic insults. Cells born in the 108 109 weeks before and after an insult develop morphological and functional abnormalities (Parent et 110 al., 2006, Jessberger et al., 2007, Walter et al., 2007, Murphy et al., 2011, Santos et al., 2011). 111 Following epileptogenic insults, adult-born DGCs populate the dentate hilus (hilar ectopic 112 granule cells), a region they rarely occupy in normal animals (Scharfman et al., 2000). Afferent 113 inputs to these ectopic DGCs are abnormal, and the cells can exhibit atypical bursting properties 114 (Zhan et al., 2010, Myers et al., 2013, Althaus et al., 2015). DGCs with basal dendrites are also 115 common in the epileptic brain, a feature typically absent from non-epileptic rodent DGCs. Basal 116 dendrites are hypothesized to form recurrent circuits and promote hyperexcitability within the 117 hippocampus (Ribak et al., 2000, Shapiro et al., 2008). 5 118 119 Although it is well established that abnormal DGCs are derived from adult-progenitor 120 cells, it is not known whether all progenitors contribute equally to the production of abnormal 121 cells, or whether distinct subsets of progenitors preferentially produce them. Answering this 122 question will provide novel insights into the mechanisms underlying aberrant granule cell 123 accumulation. Equal participation among progenitors suggests systemic changes in the factors 124 regulating granule cell development, while unequal participation suggests regional disruption of 125 neurogenic niches or intrinsic changes within individual progenitors. Here, we utilized a 126 conditional Brainbow reporter line driven by an inducible Gli1-CreERT2 promotor construct to 127 lineage-trace clones arising from Gli1-expressing granule cell progenitors in the pilocarpine 128 model of epilepsy. Brains were rendered translucent using a novel clearing agent. Hippocampi 129 were imaged in their entirety to identify and characterize groups of daughter cells, known as 130 “clonal clusters,” each of which originates from a single, labeled progenitor. 131 132 133 134 135 6 136 Methods 137 Animals All methods involving animals were approved by the Institutional Animal Care and Use 138 139 Committee of the Cincinnati Children's Hospital Research Foundation and conform to NIH 140 guidelines for the care and use of animals. For the present study, hemizygous Gli1-CreERT2 mice 141 (Ahn and Joyner, 2005) (https://www.jax.org/strain/007913) were crossed to mice homozygous 142 for a Gt(ROSA)26Sortm1(CAG-Brainbow2.1)Cle/J “Brainbow” reporter construct (Cai et al., 2013) 143 (https://www.jax.org/strain/013731) to generate double transgenic Gli1-CreERT2::Brainbow 144 mice. All animals were on a C57BL/6 background. A total of 30 double-transgenic mice were 145 randomly assigned to control or treatment (pilocarpine-induced status epilepticus) groups for the 146 present study. Postnatal tamoxifen treatment of these mice restricts CreERT2 expression to type-1 147 cells in the hippocampal subgranular zone (Ahn and Joyner, 2005, Murphy et al., 2011, Hester 148 and Danzer, 2013). Tamoxifen-induced activation of Cre-recombinase causes random excision 149 and/or inversion between multiple pairs of lox sites, leading to the expression of one of four 150 possible different fluorescent proteins in progenitor cells and all their progeny (Livet et al., 151 2007). To facilitate morphological analyses, only cells expressing the cytoplasmic red or yellow 152 fluorescent proteins (RFP or YFP) were examined. Cells expressing cyan fluorescent protein 153 (CFP) were excluded because morphological details were poorly revealed by this membrane- 154 bound protein. GFP-expressing cells were not observed in any of the animals, consistent with 155 prior work (Calzolari et al., 2015). 156 157 Tamoxifen-induced cell labelling and pilocarpine treatment To achieve sparse labelling of progenitor cells, mice were given three injections of 158 159 tamoxifen (250 mg/kg, s.c.) on alternate days during postnatal week seven (Fig. 1A). At eight 7 160 weeks of age, all mice received methyl scopolamine nitrate in sterile saline (1 mg/kg, s.c.), 161 followed fifteen minutes later by either pilocarpine (420 mg/kg, s.c.; n=25) or saline solution 162 (controls, n=5). Animals were monitored behaviorally for seizures and the onset of status 163 epilepticus (defined as continuous tonic-clonic seizures). Following three hours of status 164 epilepticus (SE) mice were given two injections of diazepam, ten minutes apart (10 mg/kg, s.c.), 165 to alleviate seizure activity. Mice were given sterile Ringers solution as needed to restore 166 pretreatment body weight and were then returned to their home cages, where they were provided 167 with food and water ad libitum. Mice were housed under a 14/10 hour light/dark cycle to 168 optimize breeding (Fox et al., 2007). Of the 25 mice randomly assigned to pilocarpine treatment, 169 12 (48%) survived to the end of the experiment, yielding a final group consisting of 7 males and 170 5 females. There was no mortality among the five control animals (3 males and 2 females). 171 172 Tissue preparation for whole hippocampal imaging At 16 weeks of age, animals were euthanized by intraperitoneal injection of 100 mg/kg 173 174 pentobarbital. The mice were perfused through the ascending aorta with ice-cold phosphate- 175 buffered saline (0.1M PBS) containing 1 U/ml heparin for 30 seconds at 10 ml/min, immediately 176 followed by a 2.5% paraformaldehyde + 4% sucrose solution in 0.1M PBS at 25oC for ten 177 minutes. Brains were removed, dissected into left and right hemispheres and post-fixed in the 178 same solution overnight at 4°C. Brain hemispheres were cryoprotected in 10%, 20% and 30% 179 sucrose in PBS for 24, 24 and 48 hours, respectively. The hemispheres were then frozen in 180 isopentane cooled to −23°C with dry ice and stored at −80°C until sectioning. Brain hemispheres 181 were thawed in PBS for scale clearing and 300 µm coronal sections were cut on a tissue slicer 182 (Campden Instruments, Lafayette, USA). Sections were transferred to 24 multiwell tissue culture 8 183 plates (Becton Dickinson, New Jersey, USA), maintaining their septo-temporal order. Sections 184 were incubated for optical clearing in ScaleA2 for two weeks at 4°C (Hama et al., 2011). At least 185 one hemisphere from each animal was used for clonal analysis, and in three cases both 186 hemispheres were used (2 SE and 1 control). No significant differences in cluster composition 187 were found between hemispheres within animals (Mann-Whitney rank sum test), so hemispheres 188 were pooled by animal for statistical analysis. The remaining hemispheres were used for 189 immunohistochemical characterization of Brainbow-labeled cells. 190 191 Tissue preparation for immunohistochemistry Unused hemispheres from a subset of animals (n=5) were sectioned coronally on a 192 193 cryostat at 60 μm and mounted to gelatin-coated slides. Sections were immunostained with 194 mouse anti-nestin (1:100; Millipore), chicken anti-GFAP (1:500; Chemicon), goat anti- 195 doublecortin (1:250; Santa Cruz), mouse anti-calretinin (1:200; Millipore) or guinea pig anti- 196 calbindin-D-28K (1:200; Sigma). Alexa Fluor 405 goat anti-mouse, 488 goat anti-chicken, 594 197 goat anti-mouse, 647 donkey anti-goat or Alexa Fluor 647 goat anti-guinea pig secondary 198 antibodies were used (Invitrogen). Tissue was dehydrated in alcohol series and cleared in 199 xylenes, and coverslips were secured with mounting media (Krystalon; Harleco). 200 201 Confocal Microscopy ScaleA2 cleared hippocampal sections were imaged on a Nikon A1R GasAsP confocal 202 203 system attached to a motorized Nikon Eclipse Ti inverted microscope (Nikon Instruments, New 204 York, USA). This system was used to capture three-dimensional image stacks through the z- 205 depth of the tissue at 1 μm steps using a 10X Plan Apo λ objective (NA=0.25) at 1X optical 9 206 zoom (field size 1024 x 1024 pixels, 1.23 pixels/µm). These 10X image stacks were used to 207 identify clonal clusters, defined here as cells expressing the same fluorophore and contained 208 within a 150 μm radius of the clone center (Bonaguidi et al., 2011, Calzolari et al., 2015). 209 Identified clonal clusters were then imaged using a 40X Plan Apo IR DIC- Water Immersion 210 objective (NA=1.3) at 1X optical zoom (field size 1024 x 1024 pixels, 0.31 pixels/um). All cells 211 selected for analysis were brightly labeled with RFP or YFP and had their somas fully contained 212 within the tissue section. The investigator was blind to treatment group during all image 213 collection and data analysis. 214 215 3-dimensional hippocampal reconstructions Confocal z-series image stacks were converted into 8 bit RGB tiff files. Reconstruct 216 217 Software (John C. Fiala, the National Institutes of Health) (Lu et al., 2009) was used to septo- 218 temporally align sections (10X images) for each hippocampus (Fig. 1B). Aligned z-stacks were 219 imported into Neurolucida software for analysis (Version 11.01, Microbrightfield Inc.,Williston, 220 VT). Borders of the granule cell body layer were traced at z-intervals of 100 μm to recreate the 221 whole hippocampus. 222 223 Morphological classification Higher magnification images (40X) were used to categorize cells within each cluster as 224 225 follows: 1) Type-1 cell, with a small cell body located in the subgranular zone and a single, 226 radial process that projects through the granule cell layer and terminates in the inner molecular 227 layer. Type-1 progenitor cells express nestin and glial fibrillary acidic protein (GFAP). 2) Type- 228 2/3 cells, with a cell body located in the subgranular zone and short, aspiny processes projecting 10 229 parallel to the plane of the granule cell body layer. Since their appearance is morphologically 230 similar, we did not attempt to distuingish between type-2 and 3 cells, or the different subtypes of 231 type-2 cells. Type-2 and 3 cells express the cellular proliferation marker doublecortin. 3) 232 Immature granule cells, with a cell body in the granule cell body layer and aspiny dendrites that 233 project radially through the granule cell body layer, but terminate prior to reaching the 234 hippocampal fissure (typically with growth cones at the tips). These cells occasionally possessed 235 short, aspiny basal dendrites and express calretenin. 4) Normal mature granule cells, with their 236 somas located in the granule cell body layer and spine-coated dendrites projecting to the 237 hippocampal fissure. Mature granule cells express calbindin. 5) Hilar ectopic granule cells, with 238 spiny dendrites and a cell body located in the hilus (at least two cell body distances, ≈20 μm, 239 away from the granule cell layer-hilar border). 6) Mature granule cells with basal dendrites, 240 possessing all the features of normal mature granule cells (see 4), but with at least one dendrite 241 originating from the hilar side of the soma (i.e. arising from a region below the soma midline). 242 Cells with basal dendrites projecting into either the dentate hilus, or the dentate molecular layer 243 (recurrent basal dendrites), were included in this measure. Only granule cells with clearly visible 244 axons were scored for basal dendrites. Basal dendrites are often thin and difficult to visualize in 245 deeper regions of the tissue. Well-developed axons should be present on all mature granule cells. 246 Confirming that these axons can be visualized limits the entry of false negatives into the data set. 247 If the axon can be visualized, then any basal dendrites, which are typically of higher caliber than 248 the axon, should also be detectable. 7) Astrocytes, defined as cells with a small cell body, located 249 anywhere within the dentate gyrus and possessing numerous thin, aspiny process projecting 250 outwards in a stellate fashion. For review of granule cell developmental markers see 251 (Kempermann et al., 2004, Bonaguidi et al., 2012, Kempermann et al., 2015). 11 252 Statistical Analysis Microsoft SQL Server (version 2012) was used to query the dataset for different clone 253 254 compositions, and statistical analysis was performed using R (Version 0.98.109) or Sigma Plot 255 (version 12.5). Sex and treatment effects were determined using two-way ANOVA. Individual 256 group differences were determined using the Holm-Sidak method for all ANOVA results. 257 Parametric tests were used for data that met assumptions for normality and equal variance. Data 258 that failed assumptions of normality and equal variance were either transformed as noted in the 259 text to meet these assumptions, or were analyzed using non-parametric alternative tests. Actual 260 tests used are noted in the text. Values presented are means ± SEM (least square means for two- 261 way ANOVA data) or medians [range], as appropriate. Details of statistical tests are given in 262 Table 1. 263 The statistical analysis for the frequency/distribution of ectopic cells and basal dendrites 264 265 was performed using the binomial distribution (to compute probabilities of combinatorial 266 events). The experiment-wise error was conservatively set at 0.001 (Cumming, 2010). 267 Corrections for multiple comparisons were done using a Bonferroni correction. For clusters 268 containing ectopic cells, the resultant p-value for significance for the pilocarpine treated animals 269 was calculated to be 4.17x10-6 (0.001/240). Similarly, for clusters containing DGCs with basal 270 dendrites, the probability of a single trial success was 0.0614 and the critical p-value was 271 calculated to be 5.41x10-6 (0.001/185). 272 273 Figure Preparation 12 Maximum projections from z-series stacks were prepared using NIS-Elements Ar 274 275 Microscope Imaging Software (version 4.0). Contrast, brightness, montage adjustments and 276 figure preparation were done using Adobe Photoshop CS5 (version 12.0). Identical filtering and 277 adjustments to brightness and contrast were done for images meant for comparison. Tableau 278 (version 8.0) and Microsoft Excel (version 2013) were used to create graphs and visualizations. 279 The image in figure 4 was cropped to remove neuronal structures above and below the cell of 280 interest that would otherwise obscure it (Walter et al., 2007, McAuliffe et al., 2011, Murphy et 281 al., 2012). This image is best viewed as a neuronal reconstruction, similar to traditional 282 neuroanatomical techniques (Danzer et al., 1998), rather than a standard photomicrograph. 283 284 285 286 13 287 Results 288 In vivo lineage tracing of individual Gli1-expressing progenitor cells in the adult mouse 289 hippocampus 290 To study the proliferative activity of a cohort of Gli1-expressing granule cell progenitors 291 in epilepsy, we treated double transgenic Gli1-CreERT2::Brainbow reporter mice with tamoxifen 292 at post-natal week seven to lineage-trace these cells. A small cohort of animals was perfused two 293 days later, revealing an average of two type-1 cells per 300 μm hippocampal coronal section 294 (Fig.1), an optimal labeling sparsity for identifying individual clones (Bonaguidi et al., 2011). 295 Gli1 expression has been shown to mark multipotent type-1 stem cells, which give rise to type- 296 2/3 stem cells and other differentiated progeny (Encinas et al., 2011). Animals in the main study 297 groups received either saline or pilocarpine one week after tamoxifen treatment (Fig.1A). 298 Pilocarpine induces acute status epilepticus (SE) and the subsequent development of epilepsy a 299 few weeks later (Turski et al., 1983). Animals were killed two months after pilocarpine treatment 300 – when spontaneous seizures are typically frequent (Castro et al., 2012, Hester and Danzer, 301 2013). Hippocampi were imaged in their entirety to identify all fluorescently-labeled cells 302 (Fig.1B). Brainbow fluorophore expression was strictly tamoxifen dependent and was limited to 303 dentate granule cells, astrocytes and sub-granular zone progenitor cells (Fig.1C). We first 304 assessed whether status epilepticus altered the number of clonal clusters per hippocampus 305 (control, female, n=2 mice, 4.0±5.8 clusters per hippocampus; control, male, n=3, 13.3±4.8; SE, 306 female, n=5, 24.9±4.2; SE, male, n=7, 11.0±2.9). The effect of status epilepticus was found to be 307 dependent on animal sex (Fig.2; p=0.025, two-way ANOVA). Post-hoc tests revealed a 308 significant increase in female, but not male, mice in clusters per hippocampus relative to controls 309 (p = 0.012, Holm-Sidak method) and significantly more clusters in females vs. males within the 14 310 pilocarpine-treated groups (p = 0.017, Holm-Sidak method). Differences between sexes could 311 reflect differential numbers of progenitors prior to pilocarpine treatment and differential behavior 312 of progenitors after treatment. Greater apoptosis of quiescent progenitor cells or entire clonal 313 groups in males, for example, would reduce the number of clonal clusters. Sexually dimorphic 314 changes in neurogenesis have been observed following early-life stress in rodents (Loi et al., 315 2014). The present findings suggest that dimorphic responses to adult status epilepticus also 316 occur. 317 318 Status epilepticus increases the average number of cells per clonal cluster Increased hippocampal neurogenesis and cell survival have been consistently 319 320 demonstrated in epilepsy models (Bengzon et al., 1997, Parent et al., 1997, Gray and Sundstrom, 321 1998, Parent et al., 1998). In addition to an increase in the number of clonal clusters in female 322 mice, the present work also revealed an increase in the mean size of individual clones. 323 Specifically, mean clonal size increased from 3.0±0.7 cells/cluster in controls to 5.1±0.5 in SE 324 mice (Fig.1, p=0.033, SE (n=12) vs. control (n=5), two-way ANOVA). In contrast to cluster 325 number, however, no differences between males and females were found for cluster size 326 (p=0.822) nor was there an interaction between treatment and sex (p=0.107). Similarly, no 327 additional sex differences or interactions were found in pre-tests for all additional data presented 328 here (data not shown), so males and females were binned for all further statistical analyses. 329 Taken together, these data suggest that the increase in new granule cells after SE is likely due to 330 increased proliferation among individual progenitors (increased cluster size) and/or reduced 331 apoptosis of their progeny (more clusters, increased cluster size). 332 15 333 Status epilepticus promotes terminal differentiation of hippocampal progenitor cells While neurogenesis is increased after an acute epileptogenic injury, it can decrease in 334 335 chronic epilepsy (Hattiangady et al., 2004, Danzer, 2012). A growing body of literature 336 demonstrates that progenitor cell pools can be depleted as progenitors proceed through multiple 337 rounds of division, ultimately leading to terminal differentiation (Ledergerber et al., 2006, 338 Encinas et al., 2011). Reduced neurogenesis in chronic epilepsy, therefore, could be a direct 339 consequence of increased progenitor cell activity early in the disease. 340 To assess whether this might be the case, we used morphological criteria to classify cells 341 342 as type-1 progenitors, type-2/3 progenitors, immature granule cells, mature granule cells or 343 astrocytes (Fig. 2A). The accuracy of this morphological classification was confirmed by 344 immunocharacterization of the different cell types quantified (Fig. 2B). This lineage analysis 345 revealed a significant reduction in the progenitor cell pool in status-exposed animals. Compared 346 to control animals, status animals exhibited an 84% reduction in type-1 cells (p=0.013, SE 347 (n=12) vs. control (n=5), Mann-Whitney Rank Sum Test). No difference in the percentage of 348 type-2/3 cells was found (p=0.870, SE (n=12) vs. control (n=5), Mann-Whitney RST). Overall 349 there was a 58% reduction in the percentage of clusters containing either type-1 or type-2/3 350 progenitors, dropping from 46.2±8.1% in control animals to 18.6±5.0% in animals exposed to 351 status (Fig. 2E; p=0.009, SE (n=12) vs. control (n=5), Two-tailed t-test). Symmetric self- 352 renewing clusters (composed of two type-1 cells) decreased from a median of 4.5% [range 0- 353 16.7%] of clusters/animal in controls to nil in SE animals (p=0.006, SE (n=12) vs. control (n=5), 354 Mann-Whitney RST). The significant shift away from progenitors in animals exposed to status 355 was mirrored by a non-significant trend in the proportion of mature granule cells produced 16 356 (p=0.065, SE (n=12) vs. control (n=5), Mann-Whitney RST) and a significant increase in the 357 percentage of clusters that were “fully differentiated,” meaning the clusters contained only 358 granule cells and astrocytes, and were devoid of progenitors (p=0.010, SE (n=12) vs. control 359 (n=5), Two-tailed t-test). No differences in the proportions of immature granule cells (p=0.299, 360 Mann-Whitney RST) or astrocytes (p=0.223, Mann-Whitney RST) were found. 361 362 Ectopic DGCs appear in clonal clusters in which majority of the cells are ectopic 363 Hilar ectopic granule cells are a common pathology seen in temporal lobe epilepsy. These 364 neurons are newly-generated, arising after an epileptogenic brain insult, and are implicated in the 365 development of epilepsy (Hester and Danzer, 2013). The percentage of newborn cells found in 366 the hilar region of status-exposed animals was significantly increased relative to controls (Fig.3; 367 p=0.004; SE, 63 of 1238 DGCs (5.09%), Control, 1 of 192 cells (0.52%); Mann-Whitney RST), 368 consistent with previous studies (Parent et al., 2006). Clonal analysis revealed that ectopic cells 369 were concentrated within a small number of clusters. Specifically, the 63 identified ectopic cells 370 from animals exposed to status were contained within only 14 clusters (Fig. 3B). Within these 371 clusters, 76.8% of all cells were ectopic (Fig. 3B). 372 The probability of finding a set number of ectopic cells, S, in a cluster containing a total 373 374 of N cells was computed for all values of S from 1 to N (e.g. when S=N, 100% of the cells in the 375 cluster are ectopic). The minimum number of ectopic cells S, at which the p-value reaches the 376 target p-value for significance (p=4.17x10-6; see methods for calculations) was determined for 377 every cluster and compared to the observed number of ectopic cells. We found that six of the 14 378 clusters with ectopic cells exceeded the threshold p-value for significance (binomial p-value < 17 379 4.17x10-6; Fig3). The binomial probability of finding six of 240 clusters exceeding this value is 380 statistically minute (less than 1.33x10-21). Finding one cluster that exceeded the value would 381 indicate that ectopic cells are not randomly distributed, and in the present study six such clusters 382 were observed. These results provide overwhelming evidence that the accumulation of ectopic 383 cells in certain clusters is not a random event. 384 385 DGCs with basal dendrites occur in clonal clusters in which majority of the cells do not have a 386 basal dendrite Another common pathology observed in the epileptic brain is the presence of dentate 387 388 granule cells with basal dendrites (Spigelman et al., 1998, Buckmaster and Dudek, 1999). In the 389 current study, 6.14% of granule cells from status-exposed animals possessed basal dendrites. By 390 contrast, only one cell with a basal dendrites was found among the control animals (p=0.034; SE, 391 43 of 700 DGCs, Control, 1 of 101 cells; Mann-Whitney RST). The 43 basal dendrite-possessing 392 granule cells from SE mice were distributed among 31 of 185 clonal clusters (Fig.4). Among 393 these 31 clusters that contained a cell with a basal dendrite, 23 had only a single basal dendrite- 394 possessing cell; six had two; one had three and one had five cells with basal dendrites (Fig.4). 395 Using the significance criterion described in the methods (similar to that used for ectopic cells), 396 there were no clusters that contained a significant number of DGCs with basal dendrites (Fig.4). 397 Indeed, even the biggest cluster - containing 17 DGCs with five harboring a basal dendrite - 398 failed to reach significance even if the experiment-wise alpha is relaxed to 0.05 (p= 0.054; 399 threshold p value for α=0.001, 5.41x10-6; for α=0.05, 2.60x10-4). 400 401 Clonal clusters have more type-1 cells in dorsal hippocampus 18 Previous studies have reported topographical differences within the hippocampus with 402 403 respect to neurogenesis, cell densities, functional properties and electrophysiological properties 404 (Jinno, 2011, Kheirbek and Hen, 2011; Jhaveri et al., 2015). To determine whether there are 405 dorsal-ventral differences in progenitor cell behavior, we correlated cluster composition with 406 cluster bregma level (Paxinos and Franklin, 2001). Within SE animals, the number of type-1 407 cells was significantly correlated with bregma level, with greater numbers of cells identified in 408 more dorsal regions (Fig.5; p=0.0037; Spearman Rank Order Correlation). This effect persisted 409 when bregma levels were correlated with the proportion of type-1 cells at each level (type-1 410 cells/total cells), suggesting that differences in total cell numbers cannot account for the finding 411 (p=0.0238; Spearman Rank Order). The numbers and proportions of mature, immature, type 1, 412 type 2, astrocytic, ectopic and basal dendrite-possessing cells were not significantly correlated 413 with bregma level (data not shown). No significant correlations were found between bregma 414 level and the number or proportion of any cell types in control animals (data not shown). 415 416 417 418 419 19 420 Discussion Abnormal hippocampal granule cells are common in animal models of temporal lobe 421 422 epilepsy (Rolando and Taylor, 2014) and in tissue from patients with the disease (Sutula et al., 423 1988, Parent et al., 2006). Prior studies have established that many of these abnormal cells are 424 adult-generated (Walter et al., 2007, Kron et al., 2010). In the present study, we queried whether 425 two important abnormalities – ectopic DGCs and DGCs with basal dendrites – are derived with 426 equal likelihood from the entire progenitor pool, or whether they are preferentially produced by a 427 subset of progenitors. We found that ectopic granule cells were highly concentrated within 428 distinct clonal clusters: many containing only ectopic cells. By contrast, cells with basal 429 dendrites were relatively evenly distributed among clones. These findings strongly suggest the 430 existence of distinct mechanisms regulating ectopic cell migration and basal dendrite formation. 431 A second key finding provides new insights into the bimodal changes in neurogenesis rates 432 observed in epileptic animals. Neurogenesis increases acutely following an epileptogenic insult; 433 however, animals with chronic epilepsy exhibit reduced neurogenesis. Depletion of the 434 progenitor pool - potentially as a direct consequence of the early increase in neurogenesis - has 435 been hypothesized to account for these changes (Hattiangady et al., 2004). Our data provide 436 direct evidence that this is occurring, with a 70% increase in the number of daughter cells/clone 437 and a corresponding decrease in the percentage of actively dividing and self-renewing clones 438 (Fig.6). 439 440 Limitations of the current study 441 The present study uses clonal analysis methodology previously validated for the dentate 442 gyrus (Bonaguidi et al., 2011). Nonetheless, it is expected that progenitor cells labeled with the 20 443 same fluorophore will occasionally appear in close proximity to one another, leading to the false 444 conclusion that they represent a single clonal cluster. Conclusions based on rare clonal events, 445 therefore, should be made with caution if the observation could also be accounted for by a false 446 merging of clusters. As an example, it is possible that some of the clones with mixes of ectopic 447 and normally positioned cells shown in figure 3 are actually merged clonal clusters. Notably, 448 however, our findings in control animals are remarkably similar to Bonaguidi and colleagues 449 (2011) work using the Nestin-CreERT2 driver line to label progenitor cells. We found a similar 450 distribution of cluster sizes (Fig.1D) in the animals and were able to reproduce key findings - 451 such as the occurrence of symmetric cell divisions - yielding two type-1 cells. One difference we 452 noted was a greater degree of neurogenesis among clusters using the Gli1 driver relative to the 453 nestin driver used previously. The nestin driver produced a roughly equal ratio of neurons to 454 astrocytes (Bonaguidi et al., 2011, Song et al., 2012); whereas neurons were much more common 455 in the present work (Fig.2D). The higher ratio of neurons to astrocytes is consistent with studies 456 using cell birthdating and viral-labeling approaches (Steiner et al., 2004), and may reflect 457 differences between Gli1 and nestin-expressing stem cells. 458 A second notable caveat is that the present study examined only progenitor cells labeled 459 460 in the week before status epilepticus, in order to examine the impact of status epilepticus on 461 progenitor cells (rather than their offspring, as would be achieved with earlier labeling), and to 462 ensure equivalent labeling of progenitor populations between control and epileptic animals. The 463 progenitor pool changes after status epilepticus, so labeling after the insult will presumably label 464 a population of progenitors that diverges from controls. Aberrant granule cell integration occurs 465 over a protracted time course, and includes immature cells born weeks before status, as well as 21 466 cells born months later. Whether the current findings will extend to populations generated at 467 other time points remains to be determined. 468 469 Clonal analysis of adult SGZ neurogenesis following status epilepticus In the present study we employed an in vivo, genetic, sparse-labeling approach to mark 470 471 stem cells for lineage-tracing. This approach has been used previously to study neural stem cell 472 behavior in the sub-ventricular (Calzolari et al., 2015) and sub-granular (Suh et al., 2007, 473 Bonaguidi et al., 2011) proliferative zones in healthy animals. We combined this approach with 474 recently developed tissue clearing protocols, allowing us to generate three-dimensional 475 reconstructions of the entire rodent hippocampus; and the Brainbow reporter line, allowing us to 476 separate clonal groups by fluorochrome expression. Poor recombination with the Brainbow 477 reporter in CNS tissue limited our study to two colors, rather than the potential seven colors 478 evident in other tissues (Livet et al., 2007, Cai et al., 2013). Even with two colors, however, the 479 strategy provided sufficient spatial resolution for the study. 480 An additional advantage of the genetic approach is that it avoids disturbing the target 481 482 tissue with direct brain injections, as is needed for retroviral strategies (Hope and Bhatia, 2011, 483 Ming and Song, 2011). Retrovirus also targets Sox2+ type-2 progenitor cells (Suh et al., 2007), 484 while the Gli1 driver used here targets the parent type-1 cells (Ahn and Joyner, 2005) , so the 485 different strategies provide complimentary data. 486 487 488 22 489 Localized regulation of ectopic granule cell formation Ectopic granule cells have been observed in a number of different epilepsy models. They 490 491 are hyper-excitable (Scharfman et al., 2000, Althaus et al., 2015), have atypical connections 492 within the hippocampal network (Scharfman and Pierce, 2012), and their numbers correlate with 493 the severity and duration of seizures (Hester and Danzer, 2013). The mechanisms underlying 494 ectopic cell migration, however, are unknown. A mechanistic understanding would provide new 495 insights into the development of therapeutic strategies for epilepsy. A putative mechanism that 496 could account for the current results is mislocation of progenitor cells from sub-granule zone to 497 the hilus during epileptogenesis (Parent et al., 2006). Alternatively, epileptogenic stimuli could 498 activate “dormant” progenitors trapped in the hilus during development (Gaarskjaer and 499 Laurberg, 1983, Scharfman et al., 2007). If one further presumes that daughter cells produced by 500 hilar progenitors would not have access to the necessary cues directing them to migrate into the 501 granule cell layer, the presence of entirely ectopic clonal groups could be accounted for. 502 Alternatively, seizures might lead to the localized disruption of migratory cues, like reelin 503 (Teixeira et al., 2012). Progenitor cells active in regions with disrupted cues would produce 504 daughter cells that fail to migrate correctly, while progenitors in regions with intact cues would 505 produce normal offspring. In support of this possibility, Parent and colleagues observed trains of 506 cells migrating on glial scaffolds into the hilus after seizures (Parent et al., 2006), suggesting that 507 localized changes in non-neuronal cells might play a role. Additional studies will be needed to 508 distinguish among these possibilities. 509 The finding that clonal groups with ectopic cells tend to be made up of entirely ectopic 510 511 cells is consistent with a Markov chain model (Lange, 2003). In a Markov model, there are two 23 512 states a progenitor cell can assume: Progenitors in state one give rise to DGCs correctly located 513 in the cell body layer; whereas progenitors in state two give rise to ectopic DGCs. For the model, 514 we assumed that at every mitotic cycle, cells could either stay in the same state, or transition 515 between states. The transition matrix specifies the probabilities of these transitions. Our data 516 show that the probability of a progenitor switching states is very low, and the probability that a 517 progenitor will remain in the same state is close to 100%, implying that cells that begin 518 producing ectopic cells will continue to do so, and cells that initially produce normal cells also 519 will continue to do so. Transitions between states appear to be very rare. Only 5 of 240 clusters 520 from SE mice contained a mixture of ectopic and correctly-located cells. 521 522 Temporal/global regulation of basal dendrite formation Basal dendrites were distributed close to the predicted ratio among clonal clusters, and 523 524 tended to be present in clusters in which the majority of cells lacked this feature. Progenitors that 525 produce DGCs with basal dendrites, therefore, mostly produce morphologically normal DGCs. 526 This observation suggests a mechanism that could impact the development of daughter cells 527 from any progenitor, while also leaving most daughter cells unaffected. Such a mechanism might 528 affect the entire hippocampus, but only some of the time. Seizure activity clearly meets these 529 criteria, as seizures are episodic in nature, and when these seizures generalize, as is typical for 530 the pilocarpine model, the entire hippocampus will be affected. Recent work by Botterill and 531 colleagues (2015) supports this idea, with the demonstration that limbic kindling disrupts granule 532 cell integration more severely than kindling of non-limbic regions. 533 24 534 The idea that seizure activity might drive basal dendrite formation is supported by the 535 work of Nakahara and colleagues (Nakahara et al., 2009). They demonstrated that increasing 536 neuronal activity in hippocampal slice cultures stabilized the normally transient basal dendrites 537 typically present on immature granule cells. Under low activity conditions, developing granule 538 cells briefly possess basal dendrites one to two weeks after their birth, but subsequently reabsorb 539 these processes as they mature. Increasing neuronal activity, however, allowed these processes to 540 persist through cell maturity, perhaps through a neurotrophin dependent mechanism (Danzer et 541 al., 2002, Botterill et al., 2015). Whether a similar process occurs in vivo remains to be 542 determined, but the present findings are consistent with the idea that episodic increases in 543 activity (including seizures) might similarly stabilize granule cell basal dendrites – but only 544 among granule cells that happen to be at this particular developmental stage at the time of the 545 event. 546 547 Depletion of the granule cell progenitor pool In the current study we found a decrease in progenitor cell numbers and an increase in 548 549 differentiated cells. A chronic decrease in neurogenesis has been observed previously in epileptic 550 animals (Hattiangady et al., 2004). Reduced neurogenesis could be the result of increased 551 progenitor cell quiescence, loss of functional progenitor cell division, decreased survival of 552 daughter cells, or an overall loss of progenitors. Our results provide evidence for the division- 553 coupled loss of type-1 progenitor cells as a key contributor to the chronic decline in 554 neurogenesis. We observed a decrease in quiescent and actively self-renewing progenitors, but 555 an increase in mature granule cells within clonal groups in animals following status. Activation 556 and terminal differentiation of quiescent progenitors would account for these observations. 25 557 Indeed, Encinas and colleagues (Encinas et al., 2011) observed a similar loss of stem cells during 558 the normal aging process in the mouse hippocampus. Using a genetic label they showed that 559 type-1 cells act as “disposable stem cells”: Once activated they tend to terminally differentiate 560 rather than continuing to cycle. Therefore, epileptic stimuli might accelerate the age-related loss 561 of progenitor cells from the dentate. Sierra and colleagues observed a similar reduction in the 562 progenitor cells pool following intrahippocampal injection of the convulsant kainic acid. In 563 contrast to the present results, however, they observed terminal differentiation of type-1 cells 564 into astrocytes (Sierra et al., 2015; see also Hattiangady and Shetty, 2010), rather than mature 565 granule cells as described here. This difference likely reflects the very different pathological 566 responses - and impacts on neurogenesis - between the two epilepsy models (Murphy et al., 567 2012). 568 569 Concluding Remarks 570 Our results strongly suggest different mechanistic origins for ectopic DGCs and DGCs 571 with basal dendrites. Ectopic DGCs are highly localized to specific clonal clusters, implicating 572 the parent progenitor cell or the neurogenic niche in which the progenitor resides. 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J Neurosci 27:7541-7552. 740 741 Zhan RZ, Timofeeva O, Nadler JV (2010) High ratio of synaptic excitation to synaptic inhibition in hilar ectopic granule cells of pilocarpine-treated rats. J Neurophysiol 104:3293-3304. 742 32 743 Legends 744 Figure 1: (A) Timeline depicting the experimental paradigm used. To induce fluorophore 745 expression, mice were injected with tamoxifen three times during postnatal week 7 and 746 subsequently underwent either pilocarpine or saline treatment on postnatal week 8. Mice were 747 sacrificed on postnatal week 16. (B) Example of a 3-dimensional reconstruction of the mouse 748 hippocampus. The Scale cleared 300 µm sections were imaged, aligned and reconstructed into a 749 3-dimensional reconstruction of the hippocampus with single cell resolution. (C.1) Brainbow 750 fluorophore expression was absent from animals not treated with tamoxifen. (C.2) A small 751 cohort of animals were sacrificed two days after the last tamoxifen injection (in week 7) and 752 analysis of their dentate gyri revealed that the tamoxifen treatment induced, on average, two 753 type-1 cells (indicated by white arrows) per 300 µm hippocampal section. Clonal clusters were 754 observed in both control (C.3) and pilocarpine (C.4) treated animals. (D) The number of cells per 755 cluster increased in pilocarpine treated animals. Scale bar for B (3D reconstruction) = 600 µm; 756 C.1 and C.2 = 250 µm; C.3 and C.4= 200 µm. 757 758 Figure 2: (A) Cells present in clonal clusters were classified based on morphology (see methods) 759 into either (A.1) type-1 progenitor cells, (A.2) type-2/3 progenitor cells, (A.3) immature granule 760 cells, (A.4) mature granule cells with (A.5) spiny apical dendrites or (A.6) astrocytes. 761 (B) Immunocharacterization of the different cell types. Type-1 cells were shown to express nestin 762 and GFAP; Type-2/3 cells expressed doublecortin (DCX); Immature DGCs expressed calretinin; 763 Mature DGCs express calbindin and astrocytes were shown to express GFAP. (C) The number of 764 clonal clusters/mouse hippocampus was significantly increased in female mice that underwent 765 status epilepticus (SE) relative to female controls. Female SE mice also had more clusters than 766 male SE mice. (D) Graph shows the composition of cell types in clonal clusters from control and 33 767 SE animals. There was a significant decrease in the number of type-1 cells and a trend (p=0.06) 768 towards an increase in the number of mature cells in mice exposed to status. (E) The percentage 769 of clusters containing either type-1 or type 2/3 progenitors was decreased in SE mice relative to 770 controls, while the percentage of fully differentiated clusters increased. *, p<0.05; **, p<0.01. 771 Scale bar for A.1 – A.3 and A.6 = 25 µm; A.4 and A.5 = 50 µm; B = 20 µm. RFP, red 772 fluorescent protein. YFP, yellow fluorescent protein. 773 774 Figure 3: Ectopic dentate granule cells are derived from a small number of clonal clusters. 775 Shown is an image of clonal cluster composed entirely of hilar ectopic dentate granule cells 776 (higher magnification image in purple inset). The graph shows quantification of all the clusters 777 from SE animals which contained ectopic cells. Additionally, for comparison, nine randomly 778 selected clusters containing no ectopic cells are shown. Orange bars show the total number of 779 cells in the cluster whereas the blue bars show the number of ectopic cells. Ectopic DGCs tended 780 to occur in clusters in which majority of the cells are ectopic. GCL= granule cell layer, H= hilus. 781 Scale bar for A =150 µm, Scale bar for inset of A= 40 µm. 782 783 Figure 4: Dentate granule cells with basal dendrites arise from diverse of clonal clusters. Shown 784 is a neuronal reconstruction of a granule cell (red) with basal dendrites (white arrows) within a 785 clonal cluster. The axon is denoted by the arrowhead. Adjacent cells in the cluster are shown in 786 blue. The graph shows quantification of all the clusters from SE animals which contained cells 787 with basal dendrites (blue bars) relative to total cluster size (orange bars). For comparison, a 788 subset of randomly selected clusters that contained only normal DGCs are shown. Scale bar = 50 789 µm. 34 790 Figure 5: Graphs show the distribution of mature granule cells (top) and type-1 cells (bottom) 791 along the dorsal-ventral axis of the hippocampus. Black dots depict the total number of cells at 792 each bregma level (top graph only), while blue dots depict the number of mature or type-1 cells, 793 respectively. Red triangles give the percentage of mature or type-1 cells at each level. No 794 relationship between mature cells and bregma level was evident, while higher numbers and 795 proportions of type-1 cells were present at more dorsal levels. 796 797 Figure 6: Summary of the key findings of the study. The first panel shows five, type-1 798 progenitor cells labeled with either RFP (red) or YFP (yellow), numbered from 1 to 5. Under 799 control conditions most of the type-1 cells remain quiescent (progenitors 1, 2, 4 and 5 remain 800 quiescent), however, a proportion of type-1 cells will enter the mitotic cycle to give rise to 801 differentiated cells (only progenitor 3 undergoes terminal differentiation). After epileptogenesis, 802 three key changes occur: (i) The number of clusters containing type-1 cells decreases in epileptic 803 animals relative to controls, and the number of clusters composed of differentiated DGCs and 804 astrocytes increases (progenitors 1, 2, 4 and 5 terminally differentiate); (ii) Progenitor cells either 805 produce all correctly located offspring, or ectopic offspring (progenitor 5 gives rise to a cluster 806 composed entirely of ectopic DGCs) and (iii) progenitors that produce correctly located offspring 807 occasionally produce cells with a basal dendrite, but mostly produce cells with normal dendrites 808 (progenitors 1 and 2 give rise to clusters which contain DGCs with basal dendrites and normal 809 DGCs). 35 Table 1 Data Number of clonal clusters per hippocampus Type of test Two-way ANOVA with treatment and sex as factors power Treatment: 0.372 Treatment x Sex: 0.579 Two-way ANOVA with treatment and sex as factors Treatment: 0.516 Treatment x Sex: 0.259 Equal Variance Test (BrownForsythe):Passed(P = 0.399) Normality Test (Shapiro-Wilk): Failed (P < 0.050) Mann-Whitney Rank Sum Test 25-75% confidence intervals, control: 7.7637; SE: 0-3.5 Control vs SE, Type 2 Normality Test (Shapiro-Wilk): Failed (P < 0.050) Mann-Whitney Rank Sum Test 25-75%, control: 0-21.6; SE: 0-6.1 Control vs SE, Immature cells Normality Test (Shapiro-Wilk): Failed (P < 0.050) Mann-Whitney Rank Sum Test 25-75%, control: 0-23.4; SE: 0-4.5 Control vs SE, Mature cells Normality Test (Shapiro-Wilk): Failed (P < 0.050) Mann-Whitney Rank Sum Test 25-75%, control: 26.983.6; SE: 75.0-93.8 Control vs SE, Astrocytes Normality Test (Shapiro-Wilk): Failed (P < 0.050) Mann-Whitney Rank Sum Test 25-75%, control: 0-10.4; SE: 3.2-7.0 Clusters with progenitors Self-renewing (2 type 1) clusters Normality Test (Shapiro-Wilk): Passed (P = 0.526) Normality Test (Shapiro-Wilk): Failed (P < 0.050) t-test Power = 0.793 Mann-Whitney Rank Sum Test 25-75%, control: 0-0.15; SE: 0-0 Fully differentiated clusters Ectopic cells Normality Test (Shapiro-Wilk): Passed (P = 0.536) Normality Test (Shapiro-Wilk): Failed (P < 0.050) t-test Power = 0.790 Mann-Whitney Rank Sum Test 25-75%, control: 0-0; SE: 0-0 Cells with basal dendrites Normality Test (Shapiro-Wilk): Failed (P < 0.050) Mann-Whitney Rank Sum Test 25-75%, control: 0-0; SE: 0-0 Mean clone size Control vs SE, Type 1 Data Structure Normality Test (Shapiro-Wilk): Passed (P = 0.561) Equal Variance Test (BrownForsythe):Passed(P = 0.614) Normality Test (Shapiro-Wilk): Passed (P = 0.658) 1
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